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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgcttgtgttcacgtgatatcatgtaacttgtaagttgtaacctaatctatccatgcttgttgtgtgtgttaccctgttagatatgcattgaaaactgcagtgtgccttttatttttatctcgaaattaataccttaattagttaattccaacagGGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAA

Basic information

species Zea mays
transcript GRMZM2G097502_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G097502_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g35530.1 (Oryza sativa), 3'ss of exon 3
gtttgtgcttgtgttcacgtgatatcatgtaacttgtaagttgtaacctaatctatccatgcttgttgtgtgtgttaccctgttagatatgcattgaaa--actgcagtgtgccttttatttttatctcgaaattaatacc-----ttaattagttaattccaacagGGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAA
                  || | || |||    ||||       |  ||  |||||| ||||   || |   | ||| |||   ||||||| ||  |    |||| | | |  | ||| |||| || | | || |  || |      |||||  ||  ||| |||||||||||||||||| | ||  ||| ||| |||||||| |||||||| ||||||||| ||||||||||||| | |||||||||||||||||||||
------------------gtaa-ataatg-gttttgtgctccccagtcttttctatc-atgcccattataaatattatcctaccagatatgtatccaggttactgtactataacctttcttttaatgttgtaagttgtatcaagtgctaattgtttggttctaacagGGAAGAGTTAGAAATCTTTTCAAAAGAAGTTGTTCGATTTGGAAATCGTTGCAAGAATCCTCAATGGCACAGCTTGGACCGCTACTTTGAAAA

upper sequence: GRMZM2G097502_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA10G36210.1 (Glycine max), 3'ss of exon 5
gtttgtgcttgtgttcacgtgatatcatgtaacttgtaagttgtaacctaatctatccatgcttgttgtgtgtgttaccctgttagatatgcattgaaaactgcagtgtgccttttatttttatctcgaaattaataccttaattagttaattccaacagGGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAA
                                   ||| ||| | |    || | | |||| |     |  ||   |  ||      | ||  ||| |   |    | |  |   || |  | |    ||| |  |  ||   ||      ||   |||| ||||| ||  || ||||  |  | || ||||| || |||||||| ||||| || |||||||||||||| ||| |||| ||||| ||||| ||
-----------------------------------gtaggttatcatg-gatattttcatgatcaactta-gtagcattctccc---tttgatttggagtttattttct-tcagctactactgtgcttaaagttttcactatcttgtactgttttgacagAGAAGAATTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAA

upper sequence: GRMZM2G097502_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA20G31400.1 (Glycine max), 3'ss of exon 5
gtttgtgcttgtgttcacgtgatatcatgtaacttgtaagttgtaacctaatctatccatgcttgttgtgtgtgttaccctgttagatatgcattgaaaactgcagtgtgccttttatttttatc-tcgaaattaataccttaattagttaattccaacagGGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAA
                    | ||||||  |  || | |     ||| || |     ||| ||   | ||  |   | | | ||     | | |     |||  | ||||| |    |||| |   ||  |    ||  ||||  || ||  |||  |||| ||||||||  || ||||  |  | || ||||| || |||||||| ||||| || |||||||||||||| ||| |||| ||||| ||||| ||
----------------gtaggttatcatcgatattttcatgatcaacttagt---agcattctccctttgatttggagcttatt-----ttcttcagctact--aatgtgcttaaagttttcactatcttatgccatttctta--tacttctttc--acagAGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAA

upper sequence: GRMZM2G097502_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G33040.1 (Glycine max), 3'ss of exon 2
gtttgtgcttgtgttcacgtgatatcatgtaacttgtaagttgtaacctaatctatccatgcttgttgtgtgtgttaccctgttagatatgcattgaaaactgcagtgtgccttttatttttatctcgaaattaataccttaattagttaattccaacagGGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAA
                  || | |  ||  || |   || |   |  |  | | |     |||| |   || |  |  ||||    | |   |||  |   | |   |  | || ||   | ||    || || ||    |  ||  || ||     |||||| |||||  |||| ||  |    |||||  |||| |||||||| ||||  ||||||||||| ||||| ||||||||||| |||||||| ||
------------------gtaacactattgaatt---aaatcaaattcctaacaaggggggcttct---gtttcatgacctgaccaacaactattttagtttacca-ggactttataaaatgat---aaactttatgtgatt-ttgatttatgtttccagGGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAA

upper sequence: GRMZM2G097502_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G00670.1 (Glycine max), 3'ss of exon 2
gtttgtgcttgtgttcacgtgatatcatgtaacttgtaagttgtaacctaatctatccatgcttgttgtgtgtgttaccctgttagatatgcattgaaa-actgcagtgtgccttttatttttatctcga-aattaataccttaat-tagttaattccaacagGGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAA
                            ||||||  | | |  |||   ||  |    |     |  |  | |||| |      ||     | || ||  | |  ||| | ||  |  ||| ||    |  ||    |   | | | |  || ||     |||||| |||||  |||| ||  |    |||||  |||| |||||||| ||||  ||||||||||| ||||| ||||||||||| |||||||| ||
----------------------------gtaactattgaat--taagtcaaattcctaactaggggggcttctgtttcataacaaggccaactttaaactattttagtttaccactactttataaaatgctaaactgtgtgtgattatgatttatgtttccagGGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAA

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|211033161|gb|FL324562.1|FL324562
EST:     ATATCCCAAGATTTTGATGAACTGCTCAAGATGGCATCTGCTGACCAAAG                         GGAAGAGTTAGAAGTATTCNCAAGAGAGGTTGTTCGCTTTGGAAANCGTTG
genomic: ATATCCAAAGATTTTGATGAACTGCTCAAGATGGCATCTGCTGACAAAAGgtttgtgctt ... attccaacagGGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgccttttatttttatctcgaaattaataccttaattagttaattccaacagGGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAA
       ttttatttttatctcg  TA-rich tract